Of the 10 samples used, one was not usable (LV13) due to an error in sample prep. Another sample (LN11) was analyzed in triplicate to demonstrate the low level of variation between technical replicates. Data was normalized using internal positive controls and calculated in the nSolver software provided by nanostring. Housekeeping genes from the RNAseq data maintained a lower coefficient of variation then the 23 lactate correlation genes assessed. Of these 23 lactate correlation genes, only 12 yielded sufficient data above the false discovery threshold calculated using internal negative controls. Of these 12 genes, only 7 maintained a correlation of .8 with lactate levels as was observed in the RNAseq experiment.
| FN12 | FN11 | LV12 | FV13 | LV13 | LV11 | LN13 | FV12 | LN11.1 | LN11.2 | LN11.3 | FN13 | LN11 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| ACTB | 4990.04 | 7271.63 | 5190.07 | 3669.79 | 22 | 2786.80 | 3948.41 | 5873.95 | 5416.64 | 5196.70 | 5713.72 | 4314.44 | 5.442353e+03 |
| ALB | 243998.83 | 160622.86 | 186705.03 | 284541.81 | 22 | 93561.25 | 180669.25 | 220259.48 | 149218.75 | 141926.48 | 156008.36 | 184519.36 | 1.490512e+05 |
| ATG12 | 166.01 | 160.75 | 134.01 | 104.13 | 22 | 119.25 | 113.05 | 158.46 | 199.39 | 180.39 | 218.10 | 107.61 | 1.992933e+02 |
| ATG16L1 | 38.42 | 38.94 | 27.00 | 46.71 | 22 | 25.00 | 25.00 | 37.00 | 45.23 | 29.74 | 41.26 | 56.00 | 3.874333e+01 |
| ATG5 | 214.04 | 151.76 | 203.37 | 153.76 | 22 | 166.62 | 154.92 | 180.97 | 180.92 | 179.40 | 194.52 | 178.99 | 1.849467e+02 |
| ATP5ME | 2184.26 | 2035.82 | 2116.00 | 1673.84 | 22 | 1411.58 | 1916.63 | 2190.57 | 2334.47 | 2125.07 | 2322.43 | 2215.97 | 2.260657e+03 |
| ATP5MF | 1064.69 | 1023.40 | 1050.95 | 786.31 | 22 | 569.20 | 889.75 | 1178.57 | 1008.93 | 965.40 | 1016.80 | 1061.86 | 9.970433e+02 |
| BCL2 | 115.25 | 74.88 | 63.48 | 102.18 | 22 | 32.98 | 51.29 | 66.63 | 59.08 | 49.56 | 62.87 | 68.08 | 5.717000e+01 |
| BCL2L11 | 16.00 | 78.88 | 27.00 | 32.00 | 22 | 25.00 | 25.00 | 37.00 | 35.00 | 23.00 | 29.00 | 29.00 | 2.900000e+01 |
| CCL2 | 27.44 | 108.83 | 27.00 | 32.00 | 22 | 25.00 | 25.00 | 37.00 | 35.00 | 23.00 | 29.00 | 29.00 | 2.900000e+01 |
| CCL4 | 16.00 | 20.00 | 27.00 | 32.00 | 22 | 25.00 | 25.00 | 37.00 | 35.00 | 23.00 | 29.00 | 29.00 | 2.900000e+01 |
| CCL5 | 50.76 | 20.00 | 27.00 | 32.00 | 22 | 25.00 | 50.24 | 37.00 | 57.23 | 50.55 | 61.89 | 47.22 | 5.655667e+01 |
| COX17 | 499.42 | 469.27 | 460.82 | 257.89 | 22 | 312.93 | 363.23 | 543.82 | 438.46 | 336.01 | 429.32 | 487.56 | 4.012633e+02 |
| COX6B1 | 1355.56 | 1297.97 | 1168.50 | 864.17 | 22 | 811.94 | 924.30 | 1268.61 | 1390.16 | 1244.91 | 1377.34 | 1095.90 | 1.337470e+03 |
| COX7B | 1621.73 | 1975.91 | 1802.12 | 1067.56 | 22 | 1085.96 | 1430.93 | 1589.13 | 1487.08 | 1411.42 | 1550.25 | 1552.71 | 1.482917e+03 |
| CPD | 225.01 | 356.44 | 296.24 | 239.40 | 22 | 257.96 | 183.18 | 533.91 | 220.62 | 191.30 | 209.25 | 104.32 | 2.070567e+02 |
| CTH | 323.80 | 177.72 | 276.26 | 570.27 | 22 | 307.01 | 356.95 | 256.60 | 355.39 | 305.28 | 337.95 | 353.59 | 3.328733e+02 |
| CXCL10 | 26.07 | 20.00 | 27.00 | 32.00 | 22 | 25.00 | 31.40 | 37.00 | 35.00 | 23.00 | 29.00 | 29.00 | 2.900000e+01 |
| CYCS | 21.95 | 31.95 | 27.00 | 32.00 | 22 | 25.00 | 25.00 | 37.00 | 35.00 | 23.00 | 29.00 | 29.00 | 2.900000e+01 |
| CYP2B6 | 1551.76 | 60.90 | 742.95 | 373.69 | 22 | 138.71 | 13589.16 | 144.06 | 4499.09 | 4312.58 | 4553.49 | 18295.46 | 4.455053e+03 |
| DDIT3 | 159.15 | 136.79 | 150.47 | 119.70 | 22 | 67.66 | 96.30 | 99.94 | 118.15 | 122.90 | 121.82 | 121.89 | 1.209567e+02 |
| EPHX1 | 2004.52 | 755.82 | 1478.85 | 1300.14 | 22 | 796.71 | 5158.48 | 470.89 | 3637.86 | 3486.93 | 3854.01 | 6698.41 | 3.659600e+03 |
| ERO1A | 187.97 | 206.68 | 169.28 | 86.61 | 22 | 131.94 | 116.19 | 162.97 | 147.69 | 149.67 | 126.73 | 147.15 | 1.413633e+02 |
| G6PC1 | 1151.13 | 914.57 | 1260.19 | 1351.72 | 22 | 1568.05 | 748.44 | 1797.12 | 542.77 | 555.05 | 570.78 | 750.00 | 5.562000e+02 |
| GAPDH | 5857.16 | 7002.05 | 3898.14 | 4071.71 | 22 | 3197.00 | 4328.39 | 7301.92 | 6248.33 | 5709.13 | 6354.26 | 4523.08 | 6.103907e+03 |
| GPX2 | 1286.96 | 1028.39 | 1048.59 | 252.05 | 22 | 387.36 | 1831.85 | 460.08 | 2215.39 | 2092.36 | 2184.89 | 1580.17 | 2.164213e+03 |
| GSKIP | 200.32 | 224.65 | 181.04 | 185.87 | 22 | 146.32 | 129.80 | 192.68 | 130.15 | 136.78 | 149.33 | 96.63 | 1.387533e+02 |
| GSTA1 | 1702.68 | 578.10 | 1015.68 | 4037.65 | 22 | 416.12 | 9807.18 | 142.26 | 13434.51 | 12610.64 | 13825.52 | 7987.58 | 1.329022e+04 |
| GSTA2 | 841.05 | 32.95 | 297.42 | 632.56 | 22 | 25.00 | 6285.85 | 37.00 | 2702.78 | 2517.57 | 2735.04 | 3845.55 | 2.651797e+03 |
| HIF1A | 478.84 | 1180.15 | 285.66 | 188.79 | 22 | 198.76 | 244.94 | 378.15 | 382.16 | 328.08 | 353.67 | 220.72 | 3.546367e+02 |
| HRCT1 | 16.00 | 20.00 | 27.00 | 32.00 | 22 | 25.00 | 25.00 | 37.00 | 35.00 | 23.00 | 29.00 | 29.00 | 2.900000e+01 |
| HSP90B1 | 1909.85 | 2529.05 | 1749.22 | 241.34 | 22 | 1424.27 | 877.19 | 1358.64 | 884.31 | 854.39 | 997.15 | 1306.74 | 9.119500e+02 |
| HSPA5 | 408.86 | 316.51 | 293.89 | 47.68 | 22 | 187.76 | 126.66 | 161.16 | 123.69 | 106.06 | 125.75 | 284.41 | 1.185000e+02 |
| IFNG | 16.00 | 20.00 | 27.00 | 32.00 | 22 | 25.00 | 25.00 | 37.00 | 35.00 | 23.00 | 29.00 | 29.00 | 2.900000e+01 |
| IGHG3 | 87.81 | 20.00 | 27.00 | 32.00 | 22 | 25.00 | 86.88 | 37.00 | 155.08 | 143.72 | 151.29 | 74.67 | 1.500300e+02 |
| IL1B | 64.48 | 45.93 | 42.32 | 41.85 | 22 | 25.00 | 52.34 | 37.00 | 35.00 | 30.73 | 33.40 | 29.00 | 3.304333e+01 |
| IL6 | 16.00 | 20.00 | 27.00 | 32.00 | 22 | 25.00 | 25.00 | 37.00 | 35.00 | 23.00 | 29.00 | 29.00 | 2.900000e+01 |
| JUN | 120.74 | 159.75 | 116.38 | 111.91 | 22 | 46.52 | 309.84 | 101.74 | 234.46 | 236.89 | 267.22 | 282.21 | 2.461900e+02 |
| LDHA | 4132.53 | 4620.78 | 3273.92 | 1574.58 | 22 | 2889.14 | 1486.41 | 4193.88 | 1852.62 | 1696.88 | 1869.53 | 1997.45 | 1.806343e+03 |
| MAP1LC3A | 105.65 | 52.92 | 55.25 | 94.40 | 22 | 56.67 | 73.27 | 69.33 | 69.23 | 63.43 | 96.28 | 94.44 | 7.631333e+01 |
| MCL1 | 255.20 | 284.56 | 280.96 | 239.40 | 22 | 178.46 | 264.83 | 232.29 | 397.85 | 354.84 | 395.91 | 259.15 | 3.828667e+02 |
| MZB1 | 16.00 | 20.00 | 27.00 | 32.00 | 22 | 25.00 | 25.00 | 37.00 | 35.00 | 23.00 | 29.00 | 29.00 | 2.900000e+01 |
| NDUFA13 | 524.11 | 562.12 | 565.44 | 392.18 | 22 | 353.53 | 479.42 | 594.24 | 611.08 | 566.95 | 641.52 | 564.42 | 6.065167e+02 |
| NDUFS6 | 1008.44 | 867.64 | 911.05 | 572.22 | 22 | 569.20 | 715.99 | 986.79 | 846.46 | 798.88 | 883.19 | 767.57 | 8.428433e+02 |
| NDUFS8 | 552.92 | 540.16 | 463.17 | 341.58 | 22 | 325.62 | 347.53 | 544.72 | 400.62 | 373.67 | 430.30 | 434.85 | 4.015300e+02 |
| NKG7 | 24.70 | 23.96 | 27.00 | 32.00 | 22 | 25.00 | 52.34 | 37.00 | 42.46 | 41.63 | 39.30 | 29.00 | 4.113000e+01 |
| NLRP3 | 16.00 | 20.00 | 27.00 | 32.00 | 22 | 25.00 | 25.00 | 37.00 | 35.00 | 23.00 | 29.00 | 29.00 | 2.900000e+01 |
| NRF1 | 26.07 | 23.96 | 27.00 | 32.00 | 22 | 25.00 | 52.34 | 37.00 | 38.77 | 28.74 | 52.07 | 66.98 | 3.986000e+01 |
| OAZ1 | 1446.11 | 1067.33 | 1175.55 | 704.57 | 22 | 993.78 | 860.44 | 1385.65 | 1355.08 | 1186.43 | 1339.03 | 1124.46 | 1.293513e+03 |
| PCK1 | 4771.89 | 2575.97 | 3594.84 | 4313.05 | 22 | 7782.75 | 2273.58 | 6369.14 | 2136.93 | 2016.04 | 2197.66 | 4848.11 | 2.116877e+03 |
| PCSK6 | 1002.95 | 1087.30 | 1458.86 | 781.45 | 22 | 1005.62 | 916.97 | 1505.40 | 858.46 | 845.47 | 890.07 | 915.82 | 8.646667e+02 |
| PMAIP1 | 16.00 | 20.00 | 27.00 | 32.00 | 22 | 25.00 | 25.00 | 37.00 | 35.00 | 23.00 | 29.00 | 29.00 | 2.900000e+01 |
| PPARGC1A | 104.27 | 87.86 | 195.14 | 165.44 | 22 | 299.40 | 102.58 | 152.16 | 84.92 | 84.25 | 99.22 | 133.97 | 8.946333e+01 |
| PPBP | 16.00 | 20.00 | 27.00 | 32.00 | 22 | 25.00 | 25.00 | 37.00 | 35.00 | 23.00 | 29.00 | 29.00 | 2.900000e+01 |
| PRF1 | 16.00 | 20.00 | 27.00 | 32.00 | 22 | 25.00 | 26.17 | 37.00 | 35.00 | 23.00 | 29.00 | 29.00 | 2.900000e+01 |
| PZP | 2438.08 | 3867.95 | 8327.63 | 1415.95 | 22 | 5873.00 | 4034.25 | 6594.23 | 6687.72 | 6336.54 | 7001.67 | 6948.78 | 6.675310e+03 |
| RPL13A | 1406.32 | 1940.97 | 1511.76 | 1305.98 | 22 | 933.73 | 1480.13 | 1499.10 | 2161.85 | 2045.77 | 2129.87 | 1492.32 | 2.112497e+03 |
| SERF2 | 28.81 | 20.00 | 27.00 | 32.00 | 22 | 25.00 | 29.31 | 37.00 | 41.54 | 31.72 | 38.31 | 35.14 | 3.719000e+01 |
| SOCS3 | 50.76 | 72.89 | 48.20 | 32.00 | 22 | 54.97 | 40.82 | 71.13 | 37.85 | 38.66 | 35.37 | 29.00 | 3.729333e+01 |
| SQSTM1 | 1881.04 | 2145.65 | 2741.39 | 1218.40 | 22 | 1518.15 | 2393.96 | 1411.76 | 5312.33 | 4886.46 | 5420.96 | 3088.96 | 5.206583e+03 |
| TFAM | 227.76 | 152.76 | 181.04 | 249.13 | 22 | 117.56 | 174.81 | 216.99 | 180.92 | 145.70 | 181.75 | 183.38 | 1.694567e+02 |
| TKT | 223.64 | 223.65 | 102.27 | 111.91 | 22 | 75.27 | 277.39 | 129.65 | 390.46 | 377.64 | 364.48 | 453.52 | 3.775267e+02 |
| TMEM63A | 193.45 | 184.71 | 114.03 | 98.29 | 22 | 128.56 | 38.73 | 243.10 | 62.77 | 65.42 | 66.80 | 105.42 | 6.499667e+01 |
| TMEM92 | 16.00 | 20.00 | 27.00 | 32.00 | 22 | 25.00 | 25.00 | 37.00 | 43.38 | 41.63 | 29.00 | 29.00 | 3.800333e+01 |
| TNF | 16.00 | 20.00 | 27.00 | 32.00 | 22 | 25.00 | 25.00 | 37.00 | 35.00 | 23.00 | 29.00 | 29.00 | 2.900000e+01 |
| TRBC1 | 34.30 | 20.97 | 27.00 | 32.00 | 22 | 25.00 | 30.36 | 37.00 | 35.00 | 28.74 | 31.44 | 29.00 | 3.172667e+01 |
| WARS1 | 171.50 | 216.66 | 116.38 | 95.37 | 22 | 74.43 | 128.75 | 133.25 | 151.39 | 112.99 | 145.40 | 169.11 | 1.365933e+02 |
| XBP1 | 2819.50 | 2797.63 | 3331.52 | 1832.46 | 22 | 2391.83 | 2180.42 | 4812.42 | 4172.32 | 4008.29 | 4134.98 | 2420.21 | 4.105197e+03 |
| ZNF746 | 16.00 | 22.96 | 27.00 | 32.00 | 22 | 25.00 | 43.96 | 37.00 | 37.85 | 23.00 | 31.44 | 45.02 | 3.076333e+01 |
| NEG_A | 7.00 | 17.00 | 12.00 | 11.00 | 22 | 10.00 | 11.00 | 13.00 | 10.00 | 11.00 | 12.00 | 10.00 | 1.100000e+01 |
| NEG_B | 9.00 | 20.00 | 12.00 | 30.00 | 7 | 14.00 | 20.00 | 23.00 | 24.00 | 21.00 | 20.00 | 17.00 | 2.166667e+01 |
| NEG_C | 1.00 | 2.00 | 2.00 | 2.00 | 2 | 7.00 | 4.00 | 7.00 | 4.00 | 2.00 | 7.00 | 5.00 | 4.333333e+00 |
| NEG_D | 1.00 | 7.00 | 4.00 | 6.00 | 6 | 3.00 | 7.00 | 4.00 | 4.00 | 7.00 | 4.00 | 2.00 | 5.000000e+00 |
| NEG_E | 11.00 | 20.00 | 10.00 | 10.00 | 10 | 14.00 | 12.00 | 14.00 | 22.00 | 15.00 | 25.00 | 21.00 | 2.066667e+01 |
| NEG_F | 16.00 | 20.00 | 27.00 | 30.00 | 21 | 25.00 | 25.00 | 37.00 | 35.00 | 23.00 | 29.00 | 29.00 | 2.900000e+01 |
| NEG_G | 1.00 | 2.00 | 1.00 | 2.00 | 1 | 2.00 | 2.00 | 1.00 | 1.00 | 3.00 | 4.00 | 1.00 | 2.666667e+00 |
| NEG_H | 6.00 | 5.00 | 7.00 | 32.00 | 1 | 1.00 | 3.00 | 15.00 | 4.00 | 3.00 | 5.00 | 6.00 | 4.000000e+00 |
| POS_A | 12645.00 | 17909.00 | 15985.00 | 18718.00 | 23104 | 22473.00 | 18006.00 | 20221.00 | 20055.00 | 19011.00 | 20336.00 | 16846.00 | 1.980067e+04 |
| POS_B | 4673.00 | 6644.00 | 6209.00 | 6811.00 | 8120 | 8083.00 | 6495.00 | 7506.00 | 7123.00 | 6886.00 | 7208.00 | 6200.00 | 7.072333e+03 |
| POS_C | 1229.00 | 1807.00 | 1596.00 | 1888.00 | 2163 | 2294.00 | 1762.00 | 1950.00 | 2004.00 | 1944.00 | 1960.00 | 1662.00 | 1.969333e+03 |
| POS_D | 277.00 | 404.00 | 353.00 | 435.00 | 473 | 471.00 | 391.00 | 454.00 | 456.00 | 423.00 | 469.00 | 379.00 | 4.493333e+02 |
| POS_E | 93.00 | 122.00 | 83.00 | 111.00 | 93 | 93.00 | 104.00 | 140.00 | 117.00 | 108.00 | 105.00 | 94.00 | 1.100000e+02 |
| POS_F | 53.00 | 63.00 | 54.00 | 67.00 | 74 | 99.00 | 60.00 | 66.00 | 70.00 | 60.00 | 52.00 | 61.00 | 6.066667e+01 |
Excluding any probes that did not exceed the maximum count observed in the negative controls for that sample. This is the most stringent false discovery identification method suggested by nanostring
Housekeeping genes should have generally lower coefficients of variation compared to the lactate correlation genes
Excluding any gene that does not have a correlation of at least .8 between the nanostring data and 3-hour lactate levels
Note: GSTA1 is only able to meet the cutoff when rounded. (r=
0.7977059)
There are 7 genes that meet the correlation cutoff of .8 that
was previously used with the RNAseq data results. All of these genes
positively correlated with lactate, with no negatively correlating genes
having sufficient levels of correlation. Alternatively, setting the
cutoff more leniently to .65 would still only yield a total of 10 genes
which would include a single negatively correlating gene